Figure 3
Chromatin accessibility is maintained through cryopreservation. (a) The fraction of reads in peaks for fresh and thawed Treg ATAC-seq libraries. Statistical significance of the difference between the fresh and thawed samples is computed by Paired Student’s t-Test. (b) Distribution of ATAC-seq peaks across distinct genomic feature expressed in proportion of annotated peaks. Promoters are defined by -1 kb to + 100 bp TSS region. Other, peaks annotated to 3’ UTR, 5’UTR, miRNA, non-coding RNA and TTS (transcription termination site). (c, d) Scatter plot of the read count per million (CPM) reads in ATAC-seq peaks identified from fresh and thawed samples during resting (c) and in response to stimulation (d). Pearson’s correlation coefficient value is indicated. (e) Correlogram showing the association of CPM reads for all the ATAC-seq samples generated for this study. (f, g) Chromatin accessibility profiles of fresh and thawed Treg cells during resting and stimulated state at the IL2RA (f) and FOXP3 (g) loci. ATAC-seq signal is intersected with T cell super enhancers, Treg chromatin states from Roadmap Epigenomics Project and FOXP3 binding sites. Each ATAC-seq track represents signal pooled from three donors. Browser view was generated using UCSC genome browser. The calculation for a-g was performed on pooled data representative of three donors.
